BAC Information

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BAC

Clone NameMSMg01-279E04
Chromosome9 (Build37)
Map Location 42,727,478 - 42,727,752
singlet/doubletsinglet
Overlap geneGrik4
Upstream geneSorl1, Sc5d, Tecta, Tbcel
Downstream geneArhgef12, LOC545339, Tmem136, Pou2f3, LOC628726, Oaf, D630033O11Rik, Trim29, LOC384931, Pvrl1, LOC100042548
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-279E04.T7 (MSMg01no279_e04.b1)MSMg01-279E04.TJ (MSMg01no279_e04.g1)
ACCAG416669AG416670
length745747
length of high quality
(start - end)
318 (45 - 362)285 (76 - 360)
definitionCHROMAT_FILE: MSMg01no279_e04.b1 PHD_FILE: MSMg01no279_e04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:19:48 2005CHROMAT_FILE: MSMg01no279_e04.g1 PHD_FILE: MSMg01no279_e04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:19:49 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAATACATGCAAGGGCTTGAAAAAAGTACTCTGGGGGCTGCAGAGAT
GCGCAGCAGTTAAGAGCACTAGCTGCTCCCCAGAGGACCTGATCCACCCA
GCACCCACATGGCAGCTCACAGCCATCCCTCAGAATCTAATGCCTTCTCC
TGGCCTCTGCAGGCACTGCATGCATGTGGTGTAGCCAAAGCATTCATACA
AACAAAAATGTTTAATGAAAAATATCTTTTAAAAAGTACTATGTGGGCTG
GAGAGATGGATCGGAGGATAAAAGCACTCACTGGCTGCTCGTCCAGAGGT
CCTGAGTTCAATTCTTAGCAACCACACTGGCGGCTCACAACCATCTACAA
TGGGGTCTGGTGCCCTCTTCTGGTGTTCAGGCATACATGCAGGCAAAACA
TTATACACATAAAAATAAATCTTTTTAAAAATGTACTATGTATTAATAGA
TAATAGTTCCCTCTAGGAACACACCAATAAGGAGAATTGTCCTGTGAGAA
TATCTGGCAGAATTCTTAAGCCTTGCAAGAAGCTGGAAATGTCTTCACTG
TATTGAAATAGCCTGATCCTTGAATAGTACCATGGACCCAGCCTGCCCCT
TCAAATGTCAAAAGCACACTCCTTACNAGAACTAAAAAAAAACAAAAAAC
AAAAATTGATGTGATGAATTTGCAAAATGCCCTCTCCATGTGTAT
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXACACCCCGGGTTAGTGATGGCGAGC
AAGGCGGGAAGCCTGCGCTCTACACAGACAGAACTGTGAATATTTGTAAT
ACGGGTACAAGATCAATAGCTTTCTTCAGATTCTCCAAGGGGTCTGTGGT
TCCAAAGAGTCCACAGGATCTGTTGTTTGCCTGCTGTCTAGCCCTCTCTC
TGTGGTATCTTTTATTCCACCCGCTGTAGTGCCAGCCATAGGACTGATTG
GCCACACCTGTGGGATCCTTCATGCTGTGGGATGCTGTGGGATGCTCAGG
CTGTGTGTGTGATGTTTTTGGATCCCCTCCTCACGCTCTTCTGCCTTTAC
CTCCTCACCTCGCTCACTTCCTTCCAGGACTCCACAACAGAGCTCCTCTG
AGCTGCCCTTTTCCCACCAGCATCAAACCTTGTAAAATGCATTTCCCACA
GTGTGGATTTTTTTTTTGTCCCTCTGTCTGTTTCACCCACAAGAGCTGGT
GCTTCTTGAAGGAGGGCCGAGGAAAGCCTCAGGAGTGTTTGTTAAATTGA
TGTGAATAAACCACTTCCACTTGGGACAGCCACAGTGTGTAGGCACCAAG
AGAAACACTGTTTAGTTGAAAAAGGATATCCTGTGTTCAGAAAGTAGAAG
AAATAACGTCGTCCTAAAATTCACAGGCAGTCACAAAAGACCTCAGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no279_e04.g1 MSMg01no279_e04.g1 CHROMAT_FILE:
MSMg01no279_e04.g1 PHD_FILE: MSMg01no279_e04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:19:49 2005
         (285 letters)



>mm_chr9_42727292_42727976
          Length = 685

 Score =  501 bits (259), Expect = e-146
 Identities = 274/285 (96%), Gaps = 10/285 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   acaccccgggttagtgatggcgagcaaggcgggaagcctgcgctctacacagacagaact 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 461 acaccccgggttagtgatggcgagcaaggcgggaagcctgcgctctacacagacagaact 402

                                                                       
Query: 61  gtgaatatttgtaatacgggtacaagatcaatagctttcttcagattctccaaggggtct 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 401 gtgaatatttgtaatacgggtacaagatcaatagctttcttcagattctccaaggggtct 342

                                                                       
Query: 121 gtggttccaaagagtccacaggatctgttgtttgcctgctgtctagccctctctctgtgg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 341 gtggttccaaagagtccacaggatctgttgtttgcctgctgtctagccctctctctgtgg 282

                                                                       
Query: 181 tatcttttattccacccgctgtagtgccagccataggactgattggccacacctgtggga 240
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 281 tatcttttattccaccctctgtagtgccagccataggactgattggccacacctgtggga 222

                                                        
Query: 241 tccttcatgctgtgggatgctgtgggatgctcaggctgtgtgtgt 285
           ||||||          |||||||||||||||||||||||||||||
Sbjct: 221 tccttc----------atgctgtgggatgctcaggctgtgtgtgt 187


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 15
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 285
Length of database: 685
Length adjustment: 9
Effective length of query: 276
Effective length of database: 676
Effective search space:   186576
Effective search space used:   186576
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)